TarDB: A miRNA Target Database in Plants.


TarDB employs cross-species conservation filter, degradome and sRNA-seq data to identify high-confidence miRNA targets in plants.



miRNA ID

bra-miR2111b

Organism

Brassica rapa

Species

Mature miRNA Sequence(5'-3')

UAAUCUGCAUCCUGAGGUUUA

PmiREN

Precursor miRNA Sequence(5'-3')

GATATTTGGTGAAGAACTGGTAATCTGCATCCTGAGGTTTAAAAATTTATAGGCAATTAAAACATGCAAATGTGTGTATGGTTTTTTAATCCTCGGGATACGGATTACCTCTTCCTTACTTGTAGTACA

PmiREN

Precursor miRNA Structure(5'-3') 

--GAUAUUU     A   CU         C         U       U     G  AAUUAAA    G 
         GGUGA GAA  GGUAAUCUG AUCCUGAGG UUAAAAA UUAUA GC       ACAU C
         ||||| |||  ||||||||| ||||||||| ||||||| ||||| ||       ||||  
         UCAUU CUU  CCAUUAGGC UAGGGCUCC AAUUUUU GGUAU UG       UGUA A
ACAUGAUGU     C   CU         A         U       U     G  -------    A

Homologous Mature miRNAs   miRNAs are clustered by CD-HIT with sequence identity of >85% and word size of 5.

aly-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA-
aly-miR2111b-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111k         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111j         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111b         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111o         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111n         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111m-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111i         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111h         UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111g-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111e-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111d-5p      UAAUCUGCAUCCUGAGGUUUA-
mtr-miR2111c         UAAUCUGCAUCCUGAGGUUUA-
ath-miR2111b-5p      UAAUCUGCAUCCUGAGGUUUA-
ath-miR2111a-5p      UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111e         UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111b         UAAUCUGCAUCCUGAGGUUUA-
bra-miR2111a         UAAUCUGCAUCCUGAGGUUUA-
csi-miR2111-5p       UAAUCUGCAUCCUGAGGUUUG-
ptc-miR2111b         UAAUCUGCAUCCUGAGGUUUG-
ptc-miR2111a         UAAUCUGCAUCCUGAGGUUUG-
atr-miR2111          UAAUCUGUAUCUUGAGGUUUGG
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